Research tool · not for clinical decision-making

Explore the molecular
structure of IBD, sample by sample.

IBDex projects intestinal bulk RNA-seq samples into a frozen, batch- and tissue-debiased latent reference learned across four harmonised cohorts, and surfaces decoder-native pathway activity alongside the discovered colon and ileum endotypes, explorable interactively, sample by sample.

Open Explorer → See how it works
3,168
harmonised samples
4
discovery cohorts
3,000
gene panel
8
colon & ileum endotypes

For clinicians

Browse discovered endotypes by tissue and see where a sample sits relative to the reference cohort, without needing to run any code.

For trial coordinators

Load your own cohort's projection output alongside the reference distribution to compare cluster membership and pathway activity.

For researchers

The full projection pipeline and frozen model are open source. Project new raw counts with the ibdex-projector CLI.

Research use only. IBDex is a research tool for exploring molecular endotype structure in IBD transcriptomic data. It is not a diagnostic device and is not validated for clinical decision-making. All data loaded into the explorer is processed locally in your browser and is never transmitted to any server.